Locus 7945

Sequence ID 3L_DroMel_CAF1
Location 21,075,530 – 21,075,730
Length 200
Max. P 0.952198
window12956 window12957 window12958

overview

Window 6

Location 21,075,530 – 21,075,650
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.08
Mean single sequence MFE -30.19
Consensus MFE -26.28
Energy contribution -27.28
Covariance contribution 1.00
Combinations/Pair 1.11
Mean z-score -1.22
Structure conservation index 0.87
SVM decision value 0.10
SVM RNA-class probability 0.583803
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21075530 120 + 23771897
UUCUAUUAUUUGGUUUCUUGUGUCUAAACACGCCAAGCUUGCAAAUUCCCAAACAAUUGUUGUGAGCUACACAGGAGCAAAGAAGCCAAAUAAAGAGCUUGGACUAAGCCACAGGACCCG
.(((.((((((((((((((((((....))))(((.((((..(((...............)))..))))......).)).)))))))))))))))))(((((...)))))........... ( -31.36)
>DroSec_CAF1 130770 120 + 1
UUCUAUUAUUUGGUUUCUUGUGUCUUAACACGCCAAGCUUGCAAAUUCCCAAACAAUUGUUGUGAGCUACACAGGAGCAAAGGAGCCAAAUAAAGAGCUUGGACUAAGCCACAGGACCCG
.(((.((((((((((((((((((....))))(((.((((..(((...............)))..))))......).)).)))))))))))))))))(((((...)))))........... ( -30.86)
>DroSim_CAF1 37008 120 + 1
UUCUAUUAUUUGGUUUCUUGUGUCUAAACACGCCAAGCUUGCAAAUUCCCAAACAAUUGUUGUGAGCUACACAGGAGCAAAGGAGCCAAAUAAAGAGCUUGGACUAAGCCACAGGACCCG
.(((.((((((((((((((((((....))))(((.((((..(((...............)))..))))......).)).)))))))))))))))))(((((...)))))........... ( -30.86)
>DroEre_CAF1 53404 112 + 1
UUCUAUUAUUCGGUUUCUUGUGUCUAAACACGCCAGGCUUGCAAAUUCCCAAACAAUUGUUGCGAGCUACGCAGGA--------GCCAAAUAAAGAGCUUGGACUAAGCCACAGGACCCG
.(((.(((((.(((((((.((((....))))((..(((((((((...............)))))))))..))))))--------))).))))))))(((((...)))))........... ( -29.46)
>DroYak_CAF1 24894 120 + 1
UUCUAUUAUUUGGUUUCUUGUGUCUAAACACGCCAAGCUUGCAAAUUCCCGAACAAUUGUUGUGCGCUACACAGGAGCAAAGGAGCUAAAGAAAGAGCUUGGACUAAGCCACAGGACCCG
...........((..(((((((.((.......((((((((.(......((.(((....)))(((.....))).))(((......)))...)...))))))))....)).))))))).)). ( -28.40)
>consensus
UUCUAUUAUUUGGUUUCUUGUGUCUAAACACGCCAAGCUUGCAAAUUCCCAAACAAUUGUUGUGAGCUACACAGGAGCAAAGGAGCCAAAUAAAGAGCUUGGACUAAGCCACAGGACCCG
.(((.((((((((((((((((((....))))....(((((((((...............)))))))))...........)))))))))))))))))(((((...)))))........... (-26.28 = -27.28 +   1.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,075,610 – 21,075,730
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.88
Mean single sequence MFE -27.98
Consensus MFE -17.98
Energy contribution -17.94
Covariance contribution -0.04
Combinations/Pair 1.17
Mean z-score -2.23
Structure conservation index 0.64
SVM decision value 0.29
SVM RNA-class probability 0.671687
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21075610 120 + 23771897
AGAAGCCAAAUAAAGAGCUUGGACUAAGCCACAGGACCCGUAAAUUGGCCAAUUAAAACUGCGGCCAAAAUUAAGAAGAAAAUUAAUUAAGACUUGCAGCCAAAGUCAAAGUUAUUUGAA
......((((((....((((.((((..((..((((.........((((((............))))))((((((........))))))....))))..))...)))).)))))))))).. ( -24.90)
>DroSec_CAF1 130850 103 + 1
AGGAGCCAAAUAAAGAGCUUGGACUAAGCCACAGGACCCGCAAAUUGGCCAAUUAAAACUGCGGCCAGG-----------------CUGAGACUUGCAGCCAAAGUCGAAGUUAUUUGAA
......((((((....((((.((((..(((.(((.....((......)).........))).)))..((-----------------(((.......)))))..)))).)))))))))).. ( -28.34)
>DroSim_CAF1 37088 103 + 1
AGGAGCCAAAUAAAGAGCUUGGACUAAGCCACAGGACCCGCAAAUUGGCCAAUUAAAACUGCGGCCGGG-----------------CUGAGACUUGCAACCAAAGUCAAAGUUAUUUGAA
......(((((((..(((((((......((...))..(((((((((....)))).....))))))))))-----------------))..(((((.......)))))....))))))).. ( -23.90)
>DroEre_CAF1 53480 99 + 1
----GCCAAAUAAAGAGCUUGGACUAAGCCACAGGACCCGCAAAUUGGCCAAUUAAAACUGUGGCCAGG-----------------CUGGGACUGGCAUCCAAAGUCAAAGUUAUUUGGA
----.((((((((.((..(((((....((((..(..((.((....((((((..........)))))).)-----------------).))..))))).)))))..))....)))))))). ( -33.60)
>DroYak_CAF1 24974 102 + 1
AGGAGCUAAAGAAAGAGCUUGGACUAAGCCACAGGACCCGCAAAUUGGCCAAUUAAAACUGUGGCCAGG-----------------CUGAGACUA-CAGCCAAAGUCAAAGUUAUUUGAA
..(((((........))))).((((..(((((((.....((......)).........)))))))..((-----------------(((......-)))))..))))............. ( -29.14)
>consensus
AGGAGCCAAAUAAAGAGCUUGGACUAAGCCACAGGACCCGCAAAUUGGCCAAUUAAAACUGCGGCCAGG_________________CUGAGACUUGCAGCCAAAGUCAAAGUUAUUUGAA
......(((((((...((..(..((.......))..)..))...((((((............))))))......................(((((.......)))))....))))))).. (-17.98 = -17.94 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,075,610 – 21,075,730
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.88
Mean single sequence MFE -29.98
Consensus MFE -22.42
Energy contribution -22.50
Covariance contribution 0.08
Combinations/Pair 1.10
Mean z-score -2.45
Structure conservation index 0.75
SVM decision value 1.42
SVM RNA-class probability 0.952198
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21075610 120 - 23771897
UUCAAAUAACUUUGACUUUGGCUGCAAGUCUUAAUUAAUUUUCUUCUUAAUUUUGGCCGCAGUUUUAAUUGGCCAAUUUACGGGUCCUGUGGCUUAGUCCAAGCUCUUUAUUUGGCUUCU
.(((((((((((.((((..(((..((.(.(((((((((........))))))(((((((..........))))))).....))).).))..))).)))).)))....))))))))..... ( -28.80)
>DroSec_CAF1 130850 103 - 1
UUCAAAUAACUUCGACUUUGGCUGCAAGUCUCAG-----------------CCUGGCCGCAGUUUUAAUUGGCCAAUUUGCGGGUCCUGUGGCUUAGUCCAAGCUCUUUAUUUGGCUCCU
.(((((((((((.((((..(((..((.(.(((.(-----------------(.((((((..........))))))....))))).).))..))).)))).)))....))))))))..... ( -31.10)
>DroSim_CAF1 37088 103 - 1
UUCAAAUAACUUUGACUUUGGUUGCAAGUCUCAG-----------------CCCGGCCGCAGUUUUAAUUGGCCAAUUUGCGGGUCCUGUGGCUUAGUCCAAGCUCUUUAUUUGGCUCCU
.(((((((((((.((((..(((..((.(.(((.(-----------------(..(((((..........))))).....))))).).))..))).)))).)))....))))))))..... ( -27.90)
>DroEre_CAF1 53480 99 - 1
UCCAAAUAACUUUGACUUUGGAUGCCAGUCCCAG-----------------CCUGGCCACAGUUUUAAUUGGCCAAUUUGCGGGUCCUGUGGCUUAGUCCAAGCUCUUUAUUUGGC----
.((((((((....((.((((((((((((.(((.(-----------------(.((((((..........))))))....))))).)...))))...))))))).)).)))))))).---- ( -33.70)
>DroYak_CAF1 24974 102 - 1
UUCAAAUAACUUUGACUUUGGCUG-UAGUCUCAG-----------------CCUGGCCACAGUUUUAAUUGGCCAAUUUGCGGGUCCUGUGGCUUAGUCCAAGCUCUUUCUUUAGCUCCU
.........(((.((((..(((((-......)))-----------------)).((((((((........((((........)))))))))))).)))).)))................. ( -28.40)
>consensus
UUCAAAUAACUUUGACUUUGGCUGCAAGUCUCAG_________________CCUGGCCGCAGUUUUAAUUGGCCAAUUUGCGGGUCCUGUGGCUUAGUCCAAGCUCUUUAUUUGGCUCCU
.(((((((((((.((((..(((.....)))........................((((((((........((((........)))))))))))).)))).)))....))))))))..... (-22.42 = -22.50 +   0.08)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:38 2006